MA_norm {HiCcompare} | R Documentation

## Perform MA normalization on a hic.table object

### Description

Perform MA normalization on a hic.table object

### Usage

    MA_norm(hic.table, degree = 2, Plot = FALSE, span = NA,
      loess.criterion = "gcv")

### Arguments

`hic.table` | A hic.table object
`degree` | The degree for loess normalization
`Plot` | logical, should the MA plot be output?
`span` | The span for loess. If left as the default value of NA the span will be calculated automatically
`loess.criterion` | The criterion for calculating the span for loess

### Details

Performs loess normalization on the MA plot of the data.

### Value

An extended hic.table with adjusted IFs and M columns.

### Examples

    # create hic.table
    data("HMEC.chr22")
    data("NHEK.chr22")
    hic.table <- create.hic.table(HMEC.chr22, NHEK.chr22, chr= 'chr22')
    # Plug hic.table into MA_norm()
    MA_norm(hic.table)

[Package HiCcompare version 1.8.0 Index]